ArticleGenetic epidemiology2016
USAT: A Unified Score-Based Association Test for Multiple Phenotype-Genotype Analysis.
Article in Genetic epidemiology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers, 1 of them a synthesis that pooled it.
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Who cites it
35 citing papers in PubMed, 1 synthesis or guideline pooled it, 51 citations in OpenAlex.
- A Bayesian hierarchically structured prior for gene-based association testing with multiple traits in genome-wide association studies.Genetic epidemiology · 2022Pooled it
- A novel association test for multiple secondary phenotypes from a case-control GWAS.Genetic epidemiology · 2017Trial
- Multivariate Genome-Wide Association Analysis Identifies Genetic Susceptibility Loci for Metabolic Syndrome in the Korean Genome and Epidemiology Study.International journal of molecular sciences · 2026Article
- Efficient inference of parent-of-origin effect using case-control mother-child genotype data.Journal of statistical planning and inference · 2024Article
- The goldmine of GWAS summary statistics: a systematic review of methods and tools.BioData mining · 2024Article
- Article
- Joint analysis of multiple phenotypes for extremely unbalanced case-control association studies using multi-layer network.Bioinformatics (Oxford, England) · 2023Article
- A copula-based set-variant association test for bivariate continuous, binary or mixed phenotypes.The international journal of biostatistics · 2023Article
- POIROT: a powerful test for parent-of-origin effects in unrelated samples leveraging multiple phenotypes.Bioinformatics (Oxford, England) · 2023Article
- Bivariate quantitative Bayesian LASSO for detecting association of rare haplotypes with two correlated continuous phenotypes.Frontiers in genetics · 2023Article
- Benchmarking statistical methods for analyzing parent-child dyads in genetic association studies.Genetic epidemiology · 2022Review
- Recent advances and challenges of rare variant association analysis in the biobank sequencing era.Frontiers in genetics · 2022Review
- Pleiotropy method reveals genetic overlap between orofacial clefts at multiple novel loci from GWAS of multi-ethnic trios.PLoS genetics · 2021Article
- Variant-set association test for generalized linear mixed model.Genetic epidemiology · 2021Article
- Scalable and Robust Regression Methods for Phenome-Wide Association Analysis on Large-Scale Biobank Data.Frontiers in genetics · 2021Review
- BTOB: Extending the Biased GWAS to Bivariate GWAS.Frontiers in genetics · 2021Article
- Associating Multivariate Traits with Genetic Variants Using Collapsing and Kernel Methods with Pedigree- or Population-Based Studies.Computational and mathematical methods in medicine · 2021Article
- Effect of non-normality and low count variants on cross-phenotype association tests in GWAS.European journal of human genetics : EJHG · 2020Article
- JASS: command line and web interface for the joint analysis of GWAS results.NAR genomics and bioinformatics · 2020Article
- Bivariate logistic Bayesian LASSO for detecting rare haplotype association with two correlated phenotypes.Genetic epidemiology · 2019Article
Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
Abstract
Genome-wide association studies (GWASs) for complex diseases often collect data on multiple correlated endo-phenotypes. Multivariate analysis of these correlated phenotypes can improve the power to detect genetic variants. Multivariate analysis of variance (MANOVA) can perform such association analysis at a GWAS level, but the behavior of MANOVA under different trait models has not been carefully investigated. In this paper, we show that MANOVA is generally very powerful for detecting association but there are situations, such as when a genetic variant is associated with all the traits, where MANOVA may not have any detection power. In these situations, marginal model based methods, however, perform much better than multivariate methods. We investigate the behavior of MANOVA, both theoretically and using simulations, and derive the conditions where MANOVA loses power. Based on our findings, we propose a unified score-based test statistic USAT that can perform better than MANOVA in such situations and nearly as well as MANOVA elsewhere. Our proposed test reports an approximate asymptotic P-value for association and is computationally very efficient to implement at a GWAS level. We have studied through extensive simulations the performance of USAT, MANOVA, and other existing approaches and demonstrated the advantage of using the USAT approach to detect association between a genetic variant and multivariate phenotypes. We applied USAT to data from three correlated traits collected on 5, 816 Caucasian individuals from the Atherosclerosis Risk in Communities (ARIC, The ARIC Investigators []) Study and detected some interesting associations.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.